Free trial: Mascot Server
You are welcome to submit searches to this free Mascot Server, subject to these restrictions:
- Searches of MS/MS data are limited in size.
- Some functions, such as no-enzyme searches, are unavailable.
- Automated searching of batches of files is not permitted.
If you want to analyse DIA data, automate search submission, perform large searches, search additional sequence databases, or customise the modifications, quantitation methods, etc., you’ll need to license your own, in-house copy of Mascot Server. Get a quote.
Please contact us if you would like to trial Mascot Server in the cloud.
MS/MS Ions Search (DIA, DDA)
The MS/MS Ions Search is for identification based on raw MS/MS data from one or more peptides. Data are typically acquired using LC-MS/MS or GeLC-MS in DIA or DDA mode.
For DIA searches, you need to encode multiple precursors per spectrum in a format suitable for Mascot. We recommend Mascot Distiller.
For DDA searches, peak lists in MGF and mzML format are suitable. All instrument data systems can generate a peak list in MGF or mzML format.
Perform search | Example of results report | Tutorial
Peptide Mass Fingerprint (PMF)
In a peptide mass fingerprint search, the experimental data are a list of peptide mass values from the digestion of a protein by a specific enzyme such as trypsin. Data are typically acquired using MALDI.
Perform search | Example of results report | Tutorial
Sequence Query
A Sequence Query searches one or more peptide mass values associated with information such as partial or ambiguous sequence strings, amino acid composition information, MS/MS fragment ion masses, etc. A super-set of a sequence tag query.
Sequence tags are typically generated from de novo peptide candidates.
Perform search | Example of results report | More information
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